Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission

S Karthikeyan, JI Levy, P De Hoff, G Humphrey… - Nature, 2022 - nature.com
As SARS-CoV-2 continues to spread and evolve, detecting emerging variants early is critical
for public health interventions. Inferring lineage prevalence by clinical testing is infeasible at …

Viral variant-resolved wastewater surveillance of SARS-CoV-2 at national scale

F Amman, R Markt, L Endler, S Hupfauf, B Agerer… - Nature …, 2022 - nature.com
SARS-CoV-2 surveillance by wastewater-based epidemiology is poised to provide a
complementary approach to sequencing individual cases. However, robust quantification of …

Unlocking capacities of genomics for the COVID-19 response and future pandemics

S Knyazev, K Chhugani, V Sarwal, R Ayyala, H Singh… - Nature …, 2022 - nature.com
During the COVID-19 pandemic, genomics and bioinformatics have emerged as essential
public health tools. The genomic data acquired using these methods have supported the …

Genetic diversity and evolutionary convergence of cryptic SARS-CoV-2 lineages detected via wastewater sequencing

DA Gregory, M Trujillo, C Rushford, A Flury… - PLoS …, 2022 - journals.plos.org
Wastewater-based epidemiology (WBE) is an effective way of tracking the appearance and
spread of SARS-COV-2 lineages through communities. Beginning in early 2021, we …

Nationwide trends in COVID-19 cases and SARS-CoV-2 RNA wastewater concentrations in the United States

C Duvallet, F Wu, KA McElroy, M Imakaev… - ACS Es&t …, 2022 - ACS Publications
Wastewater-based epidemiology has emerged as a promising technology for population-
level surveillance of COVID-19. In this study, we present results of a large nationwide SARS …

Early detection and surveillance of SARS-CoV-2 genomic variants in wastewater using COJAC

K Jahn, D Dreifuss, I Topolsky, A Kull… - Nature …, 2022 - nature.com
The continuing emergence of SARS-CoV-2 variants of concern and variants of interest
emphasizes the need for early detection and epidemiological surveillance of novel variants …

Direct comparison of RT-ddPCR and targeted amplicon sequencing for SARS-CoV-2 mutation monitoring in wastewater

EG Lou, N Sapoval, C McCall, L Bauhs… - Science of The Total …, 2022 - Elsevier
Over the course of the COVID-19 pandemic, variants of SARS-CoV-2 have emerged that are
more contagious and more likely to cause breakthrough infections. Targeted amplicon …

New prospects of environmental RNA metabarcoding research in biological diversity, ecotoxicological monitoring, and detection of COVID-19: a critical review

ST Rishan, RJ Kline, MS Rahman - Environmental Science and Pollution …, 2024 - Springer
Ecosystems are multifaceted and complex systems and understanding their composition is
crucial for the implementation of efficient conservation and management. Conventional …

SARS-CoV-2 diagnostic testing rates determine the sensitivity of genomic surveillance programs

AX Han, A Toporowski, JA Sacks, MD Perkins… - Nature Genetics, 2023 - nature.com
The first step in SARS-CoV-2 genomic surveillance is testing to identify people who are
infected. However, global testing rates are falling as we emerge from the acute health …

Monkeypox viral nucleic acids detected using both DNA and RNA extraction workflows

ME Sharkey, KM Babler, BS Shukla, SM Abelson… - Science of The Total …, 2023 - Elsevier
Molecular methods have been used to detect human pathogens in wastewater with
sampling typically performed at wastewater treatment plants (WWTP) and upstream …